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Mus musculus
5 Downloadable Samples
Affymetrix Mouse Expression 430A Array (moe430a)
Description
Effect of FGF2 on the transcriptional profile of microvascular endothelial cells
Publication Title
A pro-inflammatory signature mediates FGF2-induced angiogenesis.
Sample Metadata Fields
Specimen part, Cell line, Compound
View Samples- Danio rerio
- 2 Downloadable Samples
Illumina HiSeq 2500
Description
RNA-seq analysis of nco (no content) zebrafish embryos at 24 hours post fertilization.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Specimen part, Cell line
View Samples- Homo sapiens
- 1 Downloadable Sample
- NextSeq 500
Description
SH-SY5Y total RNA was sequenced to have an overview of expressed circular RNAs
Publication Title
No associated publication
Sample Metadata Fields
Sex, Age, Specimen part, Disease, Cell line
View Samples- Homo sapiens
- 16 Downloadable Samples
- Affymetrix Human Genome U133A Array (hgu133a)
Description
In this study the generic impact of protein aggregation (aggregation of proteins not associated with neurodegenerative disease) on gene expression in cultured cells was investigated by DNA microarray technology. The survey of gene expression showed that the Hsp40, Hsp70 and Hsp105 genes, all of which have documented aggregation suppression activity, were up-regulated. Unexpectedly, the survey also showed increased expression of the MEK5 gene with concomitant silencing of the MEK3 gene. The expression pattern of MEK5 at the mRNA and protein levels aligns with the kinetics of aggregate formation and dissolution. Cell viability was unaffected by protein aggregates. These findings are of particular importance for chronic neurodegenerative diseases where the intraneuronal accumulation of aggregate-prone proteins are a major characteristic of the diseases. The identification of changes in MEK5 gene expression have been observed in Alzheimer-related diseases which provides new diagnostic and therapeutic avenues in these diseases. The molecular neuropathological findings would not have occurred without the generic microarray analyses.
Publication Title
No associated publication
Sample Metadata Fields
Specimen part, Cell line, Time
View Samples- Danio rerio
- 3 Downloadable Samples
- IlluminaHiSeq2000
Description
the first study to comprehensively explore the effects of EriB in zebrafish model using a transcriptome analysis approach.
Publication Title
No associated publication
Sample Metadata Fields
No sample metadata fields
View Samples- Homo sapiens
- 4 Downloadable Samples
- Illumina HiSeq 2500
Description
This SuperSeries is composed of the SubSeries listed below.
Publication Title
A specific LSD1/KDM1A isoform regulates neuronal differentiation through H3K9 demethylation.
Sample Metadata Fields
Cell line
View Samples
GSE68269- Mus musculus
- 2 Downloadable Samples
- Affymetrix Mouse Gene 1.0 ST Array (mogene10st)
Description
The goal of this project is to identify genes preferentially expressed in inflammatory macrophages as compared with control macrophages.
Publication Title
Cutting Edge: IL-36 Receptor Promotes Resolution of Intestinal Damage.
Sample Metadata Fields
Specimen part, Treatment
View Samples- Homo sapiens
- 8 Downloadable Samples
- Illumina HiSeq 2500
Description
To investigate the basic principles of epigenetic control, we established an orthogonal epigenetic regulatory system in mammalian cells using N6-methyladenine (m6A), a DNA modification not commonly found in metazoan epigenomes. We developed a synthetic initiator module (synI) capable of establishing m6A marks in a sequence-specific manner at designer reporter loci integrated in the human genome, and a synthetic readout module (synR) which selectively reads m6A and consequently induces transcriptional changes. To ensure our orthogonal m6A system has minimal interaction with endogenous human transcriptional machineries, we performed RNA-sequencing analysis and determined that both synI and synR expression have minimal effect on 293FT transcriptome.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Specimen part, Cell line
View Samples- Mus musculus
- 3 Downloadable Samples
- Illumina HiSeq 2500
Description
Recent advancements in cell-based therapies for the treatment of cardiovascular disease (CVD) show continuing promise for the use of transplanted stem and cardiac progenitor cells (CPCs) to promote cardiac restitution. However, a detailed understanding of the molecular mechanisms that control the development of these cells remains incomplete and is critical for optimizing their use in such therapy. Long non-coding (lnc) RNA has recently emerged as a crucial class of regulatory molecules involved in directing a variety of critical biological and cellular processes including development, homeostasis and disease. As such, a rising body of evidence suggests that they also play key regulatory roles in CPC development, though many questions remain regarding the expression landscape and specific identity of lncRNA involved in this process. To address this, we performed whole transcriptome sequencing of two murine CPC populations – Nkx2-5 EmGFP reporter-sorted embryonic stem (ES) cell-derived and ex vivo, cardiosphere-derived – in an effort to characterize their lncRNA profiles and potentially identify novel CPC regulators. The resulting sequencing data revealed an enrichment in both CPC populations for a panel of previously-identified lncRNA genes associated with cardiac differentiation. Additionally, a total of 1,678 differentially expressed and as-of-yet unannotated, putative lncRNA genes were found to be enriched for in the two CPC populations relative to undifferentiated ES cells.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Specimen part, Disease, Disease stage, Cell line, Treatment
View Samples SRP163049- Homo sapiens
- 2 Downloadable Samples
- Illumina HiSeq 2000
Description
Comparing beta catenin knock out hESCs and wildtype hESCs to understand transcript differences between the two cell types
Publication Title
No associated publication
Sample Metadata Fields
Sex, Specimen part, Cell line
View Samples